>RARA_CHICK (Q90966) Retinoic acid receptor alpha (RAR-alpha)|
          Length = 460

 Score = 34.7 bits (78), Expect = 0.30
 Identities = 21/69 (30%), Positives = 28/69 (40%)
 Frame = -3

Query: 575 HQQQARFLLSPWTVSAVLGSASAAEALPDPCRPPPTHRLHLLKIGKRGCQDYRIPYGYSL 396
           HQ       +P   +    S S+ E +P P  PPP  R++        CQD    Y Y +
Sbjct: 46  HQLPVSGYSTPSPATVETQSTSSEEIVPSPPSPPPLPRIYKPCF---VCQDKSSGYHYGV 102

Query: 395 QFCSGCHCF 369
             C GC  F
Sbjct: 103 SACEGCKGF 111

>RARA_MOUSE (P11416) Retinoic acid receptor alpha (RAR-alpha)|
          Length = 462

 Score = 34.7 bits (78), Expect = 0.30
 Identities = 21/69 (30%), Positives = 29/69 (42%)
 Frame = -3

Query: 575 HQQQARFLLSPWTVSAVLGSASAAEALPDPCRPPPTHRLHLLKIGKRGCQDYRIPYGYSL 396
           HQ       +P   +    S+S+ E +P P  PPP  R++        CQD    Y Y +
Sbjct: 46  HQLPVSGYSTPSPATIETQSSSSEEIVPSPPSPPPLPRIYKPCF---VCQDKSSGYHYGV 102

Query: 395 QFCSGCHCF 369
             C GC  F
Sbjct: 103 SACEGCKGF 111

>RARA_HUMAN (P10276) Retinoic acid receptor alpha (RAR-alpha)|
          Length = 462

 Score = 34.7 bits (78), Expect = 0.30
 Identities = 21/69 (30%), Positives = 29/69 (42%)
 Frame = -3

Query: 575 HQQQARFLLSPWTVSAVLGSASAAEALPDPCRPPPTHRLHLLKIGKRGCQDYRIPYGYSL 396
           HQ       +P   +    S+S+ E +P P  PPP  R++        CQD    Y Y +
Sbjct: 46  HQLPVSGYSTPSPATIETQSSSSEEIVPSPPSPPPLPRIYKPCF---VCQDKSSGYHYGV 102

Query: 395 QFCSGCHCF 369
             C GC  F
Sbjct: 103 SACEGCKGF 111

>RARA_CANFA (Q5FBR4) Retinoic acid receptor alpha (RAR-alpha)|
          Length = 462

 Score = 34.7 bits (78), Expect = 0.30
 Identities = 21/69 (30%), Positives = 29/69 (42%)
 Frame = -3

Query: 575 HQQQARFLLSPWTVSAVLGSASAAEALPDPCRPPPTHRLHLLKIGKRGCQDYRIPYGYSL 396
           HQ       +P   +    S+S+ E +P P  PPP  R++        CQD    Y Y +
Sbjct: 46  HQLPVSGYSTPSPATIETQSSSSEEIVPSPPSPPPLPRIYKPCF---VCQDKSSGYHYGV 102

Query: 395 QFCSGCHCF 369
             C GC  F
Sbjct: 103 SACEGCKGF 111

>RARA_XENLA (P51126) Retinoic acid receptor alpha (RAR-alpha)|
          Length = 458

 Score = 34.3 bits (77), Expect = 0.39
 Identities = 21/69 (30%), Positives = 28/69 (40%)
 Frame = -3

Query: 575 HQQQARFLLSPWTVSAVLGSASAAEALPDPCRPPPTHRLHLLKIGKRGCQDYRIPYGYSL 396
           HQ       +P   +    S S+ E +P P  PPP  R++        CQD    Y Y +
Sbjct: 46  HQPPLSGYSTPSPATIETQSTSSEEIVPSPPTPPPLPRIYKPCF---VCQDKSSGYHYGV 102

Query: 395 QFCSGCHCF 369
             C GC  F
Sbjct: 103 SACEGCKGF 111

>RARA_NOTVI (P18514) Retinoic acid receptor alpha (RAR-alpha)|
          Length = 458

 Score = 33.9 bits (76), Expect = 0.50
 Identities = 21/60 (35%), Positives = 27/60 (45%)
 Frame = -3

Query: 548 SPWTVSAVLGSASAAEALPDPCRPPPTHRLHLLKIGKRGCQDYRIPYGYSLQFCSGCHCF 369
           SP T+     S S+ E +P P  PPP  R++        CQD    Y Y +  C GC  F
Sbjct: 56  SPATIETQ--STSSEEIVPSPPSPPPLPRIYKPCFV---CQDKSSGYHYGVSACEGCKGF 110

>RARA_FUGRU (Q9W5Z3) Retinoic acid receptor alpha (RAR-alpha)|
          Length = 447

 Score = 33.5 bits (75), Expect = 0.66
 Identities = 21/60 (35%), Positives = 27/60 (45%)
 Frame = -3

Query: 548 SPWTVSAVLGSASAAEALPDPCRPPPTHRLHLLKIGKRGCQDYRIPYGYSLQFCSGCHCF 369
           SP T+     S S+ E +P P  PPP  R++        CQD    Y Y +  C GC  F
Sbjct: 49  SPATIETQ--STSSEEIVPSPPSPPPPPRVYKPCFV---CQDKSSGYHYGVSACEGCKGF 103

>VE2_HPV04 (Q07849) Regulatory protein E2|
          Length = 402

 Score = 32.7 bits (73), Expect = 1.1
 Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
 Frame = +2

Query: 521 QERQTRSKAKVETGPAAGGSGLKRRR-EGQTGGRAEEVPVEVEKGSGRRRGE 673
           + +  +S A   T P   G  L+RRR EG++G  + E P +  +G GR  GE
Sbjct: 234 RRKPRKSDATSTTSPETEGVRLRRRRREGKSGPGSGETPRKRRRGGGRGGGE 285



 Score = 30.0 bits (66), Expect = 7.3
 Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
 Frame = +2

Query: 527 RQTRSKAKVETGPAAGGSGLKRRREGQTGGRAEEV---PVEVEKGSGRRRGE 673
           R  R + + ++GP +G +  KRRR G  GG   E+   P   E GS  R+ E
Sbjct: 254 RLRRRRREGKSGPGSGETPRKRRRGGGRGGGETELGSAPSPAEVGSRHRQVE 305

>NFM_RABIT (P54938) Neurofilament triplet M protein (160 kDa neurofilament|
           protein) (Neurofilament medium polypeptide) (NF-M)
           (Fragment)
          Length = 644

 Score = 32.7 bits (73), Expect = 1.1
 Identities = 26/70 (37%), Positives = 36/70 (51%), Gaps = 8/70 (11%)
 Frame = +2

Query: 506 QRRLSQERQTRSKAKVETGPAAGGS--GLKRRRE------GQTGGRAEEVPVEVEKGSGR 661
           ++ L QE++ + KA  E G    GS  G KR ++      G+  G+ EE P   EKGSGR
Sbjct: 494 EKPLQQEKE-KEKAGEEGGSEEEGSDQGSKRAKKEDIAVNGEGEGKEEEEPETKEKGSGR 552

Query: 662 RRGELVVAIG 691
              + VV  G
Sbjct: 553 EEEKGVVTNG 562

>KSR1_HUMAN (Q8IVT5) Kinase suppressor of ras-1 (Kinase suppressor of ras)|
          Length = 921

 Score = 31.2 bits (69), Expect = 3.3
 Identities = 16/32 (50%), Positives = 19/32 (59%)
 Frame = -2

Query: 693 SPMATTSSPRLLPLPFSTSTGTSSALPPVCPS 598
           +P +TTSS    P PF TS+  SSA  P  PS
Sbjct: 445 NPSSTTSSTPSSPAPFPTSSNPSSATTPPNPS 476

>YN19_YEAST (P53835) Hypothetical 73.4 kDa protein in ERG24-MET2 intragenic|
           region
          Length = 661

 Score = 30.8 bits (68), Expect = 4.3
 Identities = 21/81 (25%), Positives = 40/81 (49%), Gaps = 8/81 (9%)
 Frame = -3

Query: 317 NDFETNPSEYALGMVTVSVLLVYIYILSCVC--------MNNQVVLYNPLKKVVLYILLR 162
           N  ETN ++   G +  + L V   + + +         + N  +LYNP+K VV      
Sbjct: 490 NTTETNINQEVFGWINTTTLSVNNTVATMISDIDTTLADVFNGTLLYNPMKTVV-----G 544

Query: 161 CTVDSHLKLYVVQQSSSLIYD 99
           C +++  KLY ++++ + I+D
Sbjct: 545 CAIEN--KLYTIEKAMTWIHD 563

>KSR1_MOUSE (Q61097) Kinase suppressor of ras-1 (Kinase suppressor of ras)|
           (mKSR1) (Hb protein)
          Length = 873

 Score = 30.8 bits (68), Expect = 4.3
 Identities = 16/32 (50%), Positives = 19/32 (59%)
 Frame = -2

Query: 693 SPMATTSSPRLLPLPFSTSTGTSSALPPVCPS 598
           +P +TTSS    P PF TS+  SSA  P  PS
Sbjct: 432 NPSSTTSSTPSSPAPFLTSSNPSSATTPPNPS 463

>PURL_GEOKA (Q5L3D2) Phosphoribosylformylglycinamidine synthase II (EC 6.3.5.3)|
           (FGAM synthase II)
          Length = 742

 Score = 30.8 bits (68), Expect = 4.3
 Identities = 18/45 (40%), Positives = 27/45 (60%)
 Frame = +2

Query: 554 ETGPAAGGSGLKRRREGQTGGRAEEVPVEVEKGSGRRRGELVVAI 688
           E  P  GGS L++  EG+  G+A E+ +EVE     R+ +L+ AI
Sbjct: 585 EAKPEFGGSELQKWLEGRIFGKAPEIDLEVE---ASRQRQLLAAI 626

>RARB_COTJA (Q9W6B3) Retinoic acid receptor beta (RAR-beta)|
          Length = 455

 Score = 30.4 bits (67), Expect = 5.6
 Identities = 19/60 (31%), Positives = 25/60 (41%)
 Frame = -3

Query: 548 SPWTVSAVLGSASAAEALPDPCRPPPTHRLHLLKIGKRGCQDYRIPYGYSLQFCSGCHCF 369
           +P   S    S S+ E +P P  P P  R++        CQD    Y Y +  C GC  F
Sbjct: 55  TPSPASVETQSTSSEELVPSPPSPLPPPRVYKPCFV---CQDKSSGYHYGVSACEGCKGF 111

>CPN_DROME (Q02910) Calphotin|
          Length = 864

 Score = 30.4 bits (67), Expect = 5.6
 Identities = 17/45 (37%), Positives = 23/45 (51%)
 Frame = -2

Query: 684 ATTSSPRLLPLPFSTSTGTSSALPPVCPSRLRFKPLPPAAGPVST 550
           AT + P   P+  ++    +S  PPV  +     P PPAA PVST
Sbjct: 60  ATVTIPAPAPIAAASVAPVASVAPPVVAA-----PTPPAASPVST 99

>GP10_DICDI (Q06885) Glycoprotein gp100 precursor (P29F8)|
          Length = 544

 Score = 30.0 bits (66), Expect = 7.3
 Identities = 17/48 (35%), Positives = 21/48 (43%)
 Frame = -2

Query: 693 SPMATTSSPRLLPLPFSTSTGTSSALPPVCPSRLRFKPLPPAAGPVST 550
           S   +T +P   P P ST T TS  +PP   +    K   P   PV T
Sbjct: 157 SKPTSTPTPTSTPTPTSTPTPTSQTIPPPTTTPKPTKSSKPTKTPVPT 204

>V29K_TRVSY (P69473) 29 kDa protein|
          Length = 252

 Score = 30.0 bits (66), Expect = 7.3
 Identities = 21/63 (33%), Positives = 28/63 (44%)
 Frame = -3

Query: 458 HLLKIGKRGCQDYRIPYGYSLQFCSGCHCFSGAVLGVEVITQGARRANDFETNPSEYALG 279
           ++L + K GC    +P       C G + FS  V  + V T   RR N  E N S+Y  G
Sbjct: 143 NVLDVWKVGCISEGVPV------CDGTYPFSIEVSLIWVATDSTRRLNVEELNSSDYIEG 196

Query: 278 MVT 270
             T
Sbjct: 197 DFT 199

>V29K_TRVPS (P69472) 29 kDa protein|
          Length = 252

 Score = 30.0 bits (66), Expect = 7.3
 Identities = 21/63 (33%), Positives = 28/63 (44%)
 Frame = -3

Query: 458 HLLKIGKRGCQDYRIPYGYSLQFCSGCHCFSGAVLGVEVITQGARRANDFETNPSEYALG 279
           ++L + K GC    +P       C G + FS  V  + V T   RR N  E N S+Y  G
Sbjct: 143 NVLDVWKVGCISEGVPV------CDGTYPFSIEVSLIWVATDSTRRLNVEELNSSDYIEG 196

Query: 278 MVT 270
             T
Sbjct: 197 DFT 199

>RARB_CHICK (P22448) Retinoic acid receptor beta (RAR-beta)|
          Length = 455

 Score = 30.0 bits (66), Expect = 7.3
 Identities = 21/60 (35%), Positives = 26/60 (43%)
 Frame = -3

Query: 548 SPWTVSAVLGSASAAEALPDPCRPPPTHRLHLLKIGKRGCQDYRIPYGYSLQFCSGCHCF 369
           SP TV     S S+ E +P P  P P  R++        CQD    Y Y +  C GC  F
Sbjct: 57  SPATVETQ--STSSEELVPSPPSPLPPPRVYKPCFV---CQDKSSGYHYGVSACEGCKGF 111

>RARG_BRARE (Q91392) Retinoic acid receptor gamma (RAR-gamma) (ZRAR gamma)|
          Length = 499

 Score = 30.0 bits (66), Expect = 7.3
 Identities = 17/50 (34%), Positives = 22/50 (44%)
 Frame = -3

Query: 518 SASAAEALPDPCRPPPTHRLHLLKIGKRGCQDYRIPYGYSLQFCSGCHCF 369
           S S+ E +P    PPP  R++        CQD    Y Y +  C GC  F
Sbjct: 54  STSSEEMVPSSPSPPPPPRVYKPCFV---CQDKSSGYHYGVSSCEGCKGF 100

>RARG2_BRARE (Q90273) Retinoic acid receptor gamma-2 (RAR-gamma-2) (Fragment)|
          Length = 367

 Score = 30.0 bits (66), Expect = 7.3
 Identities = 17/50 (34%), Positives = 22/50 (44%)
 Frame = -3

Query: 518 SASAAEALPDPCRPPPTHRLHLLKIGKRGCQDYRIPYGYSLQFCSGCHCF 369
           S S+ E +P    PPP  R++        CQD    Y Y +  C GC  F
Sbjct: 54  STSSEEMVPSSPSPPPPPRVYKPCFV---CQDKSSGYHYGVSSCEGCKGF 100

>NANH_MICVI (Q02834) Sialidase precursor (EC 3.2.1.18) (Neuraminidase)|
          Length = 647

 Score = 30.0 bits (66), Expect = 7.3
 Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
 Frame = -3

Query: 557 FLLSPWTVSAVLGSASAAEALPDPCRPPPTHRLH----LLKIGKRGCQDYRIP 411
           FLL+P   +A +  AS A+A+     PP    L+    L   G+ G  +YRIP
Sbjct: 18  FLLAPALAAATVAGASPAQAIAGAPVPPGGEPLYTEQDLAVNGREGFPNYRIP 70

>V29K_TRVTC (P05074) 29 kDa protein (Fragment)|
          Length = 130

 Score = 30.0 bits (66), Expect = 7.3
 Identities = 21/63 (33%), Positives = 28/63 (44%)
 Frame = -3

Query: 458 HLLKIGKRGCQDYRIPYGYSLQFCSGCHCFSGAVLGVEVITQGARRANDFETNPSEYALG 279
           ++L + K GC    +P       C G + FS  V  + V T   RR N  E N S+Y  G
Sbjct: 21  NVLDVWKVGCISEGVPV------CDGTYPFSIEVSLIWVATDSTRRLNVEELNSSDYIEG 74

Query: 278 MVT 270
             T
Sbjct: 75  DFT 77

>RARB_HUMAN (P10826) Retinoic acid receptor beta (RAR-beta) (RAR-epsilon)|
           (HBV-activated protein)
          Length = 455

 Score = 29.6 bits (65), Expect = 9.5
 Identities = 20/60 (33%), Positives = 26/60 (43%)
 Frame = -3

Query: 548 SPWTVSAVLGSASAAEALPDPCRPPPTHRLHLLKIGKRGCQDYRIPYGYSLQFCSGCHCF 369
           SP T+     S S+ E +P P  P P  R++        CQD    Y Y +  C GC  F
Sbjct: 57  SPATIETQ--STSSEELVPSPPSPLPPPRVYKPCFV---CQDKSSGYHYGVSACEGCKGF 111

>YLPM1_MOUSE (Q9R0I7) YLP motif-containing protein 1 (Nuclear protein ZAP3)|
          Length = 1386

 Score = 29.6 bits (65), Expect = 9.5
 Identities = 19/49 (38%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
 Frame = -2

Query: 696 LSPMATTSSPRLLPL-PFSTSTGTSSALPPVCPSRL---RFKPLPPAAG 562
           L P A    P +LPL P S++T      PP  P  +      PLPPA+G
Sbjct: 568 LPPPALPGGPPILPLPPLSSATPPPGIPPPGAPQGMPPQLTAPLPPASG 616


  Database: uniprot_sprot.fasta
    Posted date:  May 25, 2006  5:36 PM
  Number of letters in database: 80,573,946
  Number of sequences in database:  219,361
  
Lambda     K      H
   0.318    0.135    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 93,872,289
Number of Sequences: 219361
Number of extensions: 1904428
Number of successful extensions: 6800
Number of sequences better than 10.0: 25
Number of HSP's better than 10.0 without gapping: 6378
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 6776
length of database: 80,573,946
effective HSP length: 109
effective length of database: 56,663,597
effective search space used: 7196276819
frameshift window, decay const: 50,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)